Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis

Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and func...

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Detalles Bibliográficos
Autores principales: Schor, I.E., Bussotti, G., Maleš, M., Forneris, M., Viales, R.R., Enright, A.J., Furlong, E.E.M.
Formato: JOUR
Materias:
bystander expression
embryonic development
genetic variation
lncRNA
non-coding RNA
non-essential genes
transcription
Acceso en línea:http://hdl.handle.net/20.500.12110/paper_09609822_v28_n22_p3547_Schor
Aporte de:
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires
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record_format dspace
spelling todo:paper_09609822_v28_n22_p3547_Schor2023-10-03T15:54:07Z Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis Schor, I.E. Bussotti, G. Maleš, M. Forneris, M. Viales, R.R. Enright, A.J. Furlong, E.E.M. bystander expression embryonic development genetic variation lncRNA non-coding RNA non-essential genes transcription Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles. Schor et al. identify hundreds of new lncRNAs expressed at specific embryonic stages and in mesoderm. Many have very specific spatiotemporal expression. Deletion of 3 lncRNAs are viable with no obvious phenotypes, even when stressed. Many lncRNAs have strain-specific expression, highlighting how sequence variation leads to intergenic transcription. © 2018 The Author(s) JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_09609822_v28_n22_p3547_Schor
institution Universidad de Buenos Aires
institution_str I-28
repository_str R-134
collection Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA)
topic bystander expression
embryonic development
genetic variation
lncRNA
non-coding RNA
non-essential genes
transcription
spellingShingle bystander expression
embryonic development
genetic variation
lncRNA
non-coding RNA
non-essential genes
transcription
Schor, I.E.
Bussotti, G.
Maleš, M.
Forneris, M.
Viales, R.R.
Enright, A.J.
Furlong, E.E.M.
Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
topic_facet bystander expression
embryonic development
genetic variation
lncRNA
non-coding RNA
non-essential genes
transcription
description Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles. Schor et al. identify hundreds of new lncRNAs expressed at specific embryonic stages and in mesoderm. Many have very specific spatiotemporal expression. Deletion of 3 lncRNAs are viable with no obvious phenotypes, even when stressed. Many lncRNAs have strain-specific expression, highlighting how sequence variation leads to intergenic transcription. © 2018 The Author(s)
format JOUR
author Schor, I.E.
Bussotti, G.
Maleš, M.
Forneris, M.
Viales, R.R.
Enright, A.J.
Furlong, E.E.M.
author_facet Schor, I.E.
Bussotti, G.
Maleš, M.
Forneris, M.
Viales, R.R.
Enright, A.J.
Furlong, E.E.M.
author_sort Schor, I.E.
title Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_short Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_full Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_fullStr Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_full_unstemmed Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_sort non-coding rna expression, function, and variation during drosophila embryogenesis
url http://hdl.handle.net/20.500.12110/paper_09609822_v28_n22_p3547_Schor
work_keys_str_mv AT schorie noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT bussottig noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT malesm noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT fornerism noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT vialesrr noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT enrightaj noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
AT furlongeem noncodingrnaexpressionfunctionandvariationduringdrosophilaembryogenesis
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